I have been replacing repeated scroll-wheel motion with auto-scrolling (“scroll locking”) in web browsers. I was trying to find an equivalent for Eclipse. I found a small project on Google Code that does just that:

The eclipse-mmb-scroller plug-in by Mateusz Matela adds middle mouse button scrolling to Eclipse 3.2+. I have tried it under Eclipse 3.6 Helios and it works great. Just copy the contents of the distribution’s “plugins” folder to your Eclipse installation’s “plugins” folder and restart. I recommend it to reduce RSI problems related to repetitive scrolling with the wheel.